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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgtctaactgcagttatgggtgggtgggtcggagcaacttgcacccgtaatctacagatgcttacacaaattttggttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGACGGCTAGGGTGTGGTCTCTTACCCGAGGAACATGTGACGCTGTGTTAGCA

Basic information

species Oryza sativa
transcript LOC_Os01g39380.1
intron # 28
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g39380.1 (Oryza sativa), 3'ss of exon 28
lower sequence: GRMZM2G074466_T01 (Zea mays), 3'ss of exon 8
gtaatgtcta-actgcagttatgggtgggtgggtcggagcaacttgcacccgtaatctacagatgcttacacaaatt-ttggttgattgaa-gATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGACGGCTAGGGTGTGGTCTCTTACCCGAGGAACATGTGACGCTGTGTTAGCA
||||| |||    |||| ||     |  |||             | ||  | |        ||  || ||| ||||  || || || |||| |||||||||||||||| || || ||||||||||| || |||||||||||||| ||||| |||||||| |||| ||| ||||||||||| || |||||||||
gtaatttcttcgttgcattttcaactctgtg-------------tacattcatgtgt----gactctgacataaatcatttgtcgactgaaagATCAATGAGGATGACCGGAGAGACCATAATAACAGGTAGTGATGATTGGACTGCTAGAGTGTGGTCCCTTAACCGGGGAACATGTGATGCAGTGTTAGCA

upper sequence: LOC_Os01g39380.1 (Oryza sativa), 3'ss of exon 28
lower sequence: GLYMA05G35210.1 (Glycine max), 3'ss of exon 11
gtaatgtctaactgcagttatgggtgggtgggtcggagcaacttgcacccgtaatctacagatgcttacacaaattttggttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGACGGCTAGGGTGTGGTCTCTTACCCGAGGAACATGTGACGCTGTGTTAGCA
                                            | |  |  |   ||||    | || |||||         | || || || || || |||   ||||| ||  | || ||||| ||||||||||||||||| || || |||||| || | ||||||||||||||  |||| ||||||
--------------------------------------------gtaaacaaataatacatgatcatatacaaa----aacaaaatgcagGTCCATAAGAATGGTTGGTGACACTGTGATTACTGGTAGTGATGATTGGACGGCAAGAGTATGGTCTGTTTCTCGAGGAACATGTGATACTGTCTTAGCA
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|112786965|gb|EE591782.1|EE591782
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|29628945|gb|CB633956.1|CB633956
EST:     AAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACTATAATAACTGGGAGTGATGATTGGAC
genomic: AAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|29641895|gb|CB646902.1|CB646902
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|29639658|gb|CB644667.1|CB644667
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|66923642|gb|CX110490.1|CX110490
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACTATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|27547319|gb|CA765549.2|CA765549
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|325493716|gb|JG458240.1|JG458240
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC
EST: gi|38476896|gb|CF961029.1|CF961029
EST:     CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAG                         ATCAATGAGGATGACGGGTGAAACTATAATAACTGGGAGTGATGATTGGAC
genomic: CGTTCCAGTAAGCAGATGTTCAAGCTCCAAGGGCACACAAAGTGGATAAGgtaatgtcta ... ttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagcaacttgcacccgtaatctacagatgcttacacaaattttggttgattgaagATCAATGAGGATGACGGGTGAAACCATAATAACTGGGAGTGATGATTGGACGGCTAGGGTGTGGTCTCTTACCCGAGGAACATGTGACGCTGTGTTAGCA
                                  acaaatttt  TA-rich tract